Journal Article

A comparative genomic study of a hydrocarbon-degrading marine bacterial consortium

Pardo-López, Liliana, Rojas-Vargas, Jorge, Rebollar, Eria A., Sanchez-Flores, Alejandro

2024

Overview

Ocean oil pollution has a large impact on the environment and the health of living organisms. Bioremediation cleaning strategies are promising eco-friendly alternatives for tackling this problem. Previously, we designed and reported a hydrocarbon (HC) degrading microbial consortium of four marine strains belonging to the species Alloalcanivorax xenomutans , Halopseudomonas aestusnigri , Paenarthrobacter sp., and Pseudomonas aeruginosa . However, the knowledge about the metabolic potential of this bacterial consortium for HC bioremediation is not yet well understood. Here, we analyzed the complete genomes of these marine bacterial strains accompanied by a phylogenetic reconstruction along with 138 bacterial strains. Synteny between complete genomes of the same species or genus, revealed high conservation among strains of the same species, covering over 91% of their genomic sequences. Functional predictions highlighted a high abundance of genes related to HC degradation, which may result in functional redundancy within the consortium; however, unique and complete gene clusters linked to aromatic degradation were found in the four genomes, suggesting substrate specialization. Pangenome gain and loss analysis of genes involved in HC degradation provided insights into the evolutionary history of these capabilities, shedding light on the acquisition and loss of relevant genes related to alkane and aromatic degradation. Our work, including comparative genomic analyses, identification of secondary metabolites, and prediction of HC-degrading genes, enhances our understanding of the functional diversity and ecological roles of these marine bacteria in crude oil-contaminated marine environments and contributes to the applied knowledge of bioremediation.

• Publisher: Public Library of Science,Public Library of Science (PLoS)
• Subject: Alkanes / Analysis / Bacteria / Bacteria - classification / Bacteria - genetics / Bacteria - metabolism / Biodegradation / Biodegradation, Environmental / Biology and Life Sciences / Bioremediation / Cluster analysis / Conserved sequence / Consortia / Crude oil / Environmental impact / Evolutionary conservation / Evolutionary genetics / Gene clusters / Genes / Genome, Bacterial / Genomes / Genomic analysis / Genomics / Genomics - methods / Glycerol / Hydrocarbons / Hydrocarbons - metabolism / Marine environment / Marine pollution / Medicine and Health Sciences / Metabolism / Metabolites / Microbial Consortia - genetics / Microorganisms / Oil pollution / Photodegradation / Phylogenetics / Phylogeny / Physical Sciences / Plant metabolites / Redundancy / Seawater - microbiology / Secondary metabolites / Social Sciences / Strains (organisms) / Substrates / Synteny / Taxonomy